SMTL ID : 3wn6.3 (3 other biounits)

Crystal structure of alpha-amylase AmyI-1 from Oryza sativa

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.16 Å

Oligo State

monomer

Ligands

3 x CA: CALCIUM ION(Non-covalent)

CA.1: 5 residues within 4Å: Chain A: N.92, D.138, A.141, D.148, G.183 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.138, A:D.138, A:A.141, A:G.183, H2O.3 CA.2: 4 residues within 4Å: Chain A: E.109, T.112, D.114, D.118 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.109, A:D.114, A:D.118, A:D.118, H2O.1 CA.3: 6 residues within 4Å: Chain A: D.128, D.142, F.143, A.146, P.147, D.148 6 PLIP interactions: 5 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.128, A:D.142, A:F.143, A:A.146, A:D.148, H2O.1

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 5 residues within 4Å: Chain A: W.10, Y.52, D.179, H.289, D.290 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.179 GOL.5: 2 residues within 4Å: Chain A: H.394, G.395 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:H.394

2 x TAR: D(-)-TARTARIC ACID(Non-covalent)

TAR.6: 3 residues within 4Å: Chain A: Q.226, W.277 Ligands: TAR.7 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.226, A:W.277 TAR.7: 4 residues within 4Å: Chain A: V.229, W.277, W.278 Ligands: TAR.6 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:W.278 Water bridges: A:D.233, A:W.277

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ochiai, A. et al., Crystal structure of alpha-amylase from Oryza sativa: molecular insights into enzyme activity and thermostability. Biosci.Biotechnol.Biochem. (2014)

Release Date

2014-09-10

Peptides

Alpha-amylase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

Alpha-amylase

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